Package: qmtools Title: Quantitative Metabolomics Data Processing Tools Version: 1.17.0 Authors@R: c( person(given = "Jaehyun", family = "Joo", role = c("aut", "cre"), email = "jaehyunjoo@outlook.com"), person(given = "Blanca", family = "Himes", role = c("aut"), email = "bhimes@pennmedicine.upenn.edu") ) Description: The qmtools (quantitative metabolomics tools) package provides basic tools for processing quantitative metabolomics data with the standard SummarizedExperiment class. This includes functions for imputation, normalization, feature filtering, feature clustering, dimension-reduction, and visualization to help users prepare data for statistical analysis. This package also offers a convenient way to compute empirical Bayes statistics for which metabolic features are different between two sets of study samples. Several functions in this package could also be used in other types of omics data. License: GPL-3 Encoding: UTF-8 Roxygen: list(markdown = TRUE) RoxygenNote: 7.2.3 biocViews: Metabolomics, Preprocessing, Normalization, DimensionReduction, MassSpectrometry Imports: rlang, ggplot2, patchwork, heatmaply, methods, MsCoreUtils, stats, igraph, VIM, scales, grDevices, graphics, limma Suggests: Rtsne, missForest, vsn, pcaMethods, pls, MsFeatures, impute, imputeLCMD, nlme, testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown Depends: R (>= 4.2.0), SummarizedExperiment BugReports: https://github.com/HimesGroup/qmtools/issues URL: https://github.com/HimesGroup/qmtools Config/testthat/edition: 3 VignetteBuilder: knitr LazyData: false Config/pak/sysreqs: cmake libglpk-dev make libmagick++-dev gsfonts libicu-dev libuv1-dev libxml2-dev libssl-dev zlib1g-dev Repository: https://bioc.r-universe.dev Date/Publication: 2026-04-28 12:58:09 UTC RemoteUrl: https://github.com/bioc/qmtools RemoteRef: HEAD RemoteSha: d6a8cbea4122af1df8fcfd4b68e15f678e410245 NeedsCompilation: no Packaged: 2026-05-30 07:09:30 UTC; root Author: Jaehyun Joo [aut, cre], Blanca Himes [aut] Maintainer: Jaehyun Joo